Table 4.
Association in the Replication Cohort
| SNP | Chromosome Position (bp – B36) | Gene | Alleles (A1/A2) | SLIC Risk Allele | A1 CEPH Frequency | Typed Strand | p Quant | Effect Size | p Case-Cont | Frequency of A1 Cases | Frequency of A1 controls | Odds Ratio (95% CI) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| rs12927866 | 80,209,823 | CMIP | T/C | C | 0.47 | + | 0.1623 | −0.08 | 0.0955 | 0.39 | 0.30 | 1.5 (0.9-2.3) |
| rs4265801 | 80,222,553 | CMIP | T/G∗ | T | 0.43 | + | 0.0182∗ | −0.15 | 0.0214∗ | 0.43 | 0.56 | 1.6 (1.1-2.5) |
| rs16955705 | 80,230,851 | CMIP | C∗/A | A | 0.50 | + | 0.0238∗ | −0.14 | 0.0257∗ | 0.48 | 0.36 | 1.6 (1.1-2.5) |
| rs16973771 | 83,018,079 | ATP2C2 | C/T∗ | T | 0.48 | + | 0.0079∗ | −0.14 | 0.0135∗ | 0.32 | 0.45 | 1.7 (1.1-2.7) |
| rs2875891 | 83,021,410 | ATP2C2 | T/C | C | 0.44 | + | 0.0668 | −0.06 | 0.0802 | 0.29 | 0.37 | 1.5 (1.0-2.3) |
| rs8045507 | 83,022,078 | ATP2C2 | A/G∗ | G | 0.48 | + | 0.0058∗ | −0.15 | 0.0110∗ | 0.31 | 0.44 | 1.8 (1.1-2.7) |
SNP alleles are given with the minor allele first. Putative risk alleles in the replication cohort are marked with an asterisk. p Quant shows the p value for the quantitative analysis. p < 0.05 are highlighted in bold. The odds ratio indicates the ratio of case/control odds for each additional copy of the putative risk allele. The 95% confidence intervals for the odds ratios of all significantly associated SNPs exceeded 1.0. The effect size is the estimated effect of each risk allele on the nonword-repetition score (in SD).